Nucleic Acids Research · 2012 · 33 citations · 5 references
Life SciencesBioinformaticsMolecular BiologyComputational BiologyProteomicsSequence AnalysisPeptide AnalysisPeptide IdentificationProfile Hidden Markov ModelsProtein Database SearchProtein Sequence AnalysisSequence Similarity SearchDatabase SearchingMatchingPeptide Database SearchPeptide Sequence SearchProtein Sequence SearchSequence Profile Analysis
ConoDictor is a tool that enables fast and accurate classification of conopeptides into superfamilies based on their amino acid sequence. ConoDictor combines predictions from two complementary approaches-profile hidden Markov models and generalized profiles. Results appear in a browser as tables that can be downloaded in various formats. This application is particularly valuable in view of the exponentially increasing number of conopeptides that are being identified. ConoDictor was written in Perl using the common gateway interface module with a php submission page. Sequence matching is performed with hmmsearch from HMMER 3 and ps_scan.pl from the pftools 2.3 package. ConoDictor is freely accessible at http://conco.ebc.ee.
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ConoServer: updated content, knowledge, and discovery tools in the conopeptide database
Quentin Kaas, Rilei Yu, Aihua Jin et al. · Nucleic Acids Research · 2011 · 370 citations · Full text
PeroxiBase: a database with new tools for peroxidase family classification
Dominique Koua, Lorenzo Cerutti, Laurent Falquet et al. · Nucleic Acids Research · 2008 · 168 citations · Full text